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Boston area: Friday theory lunch: Towards knowledge-based semantic integration of models

From: Alan Ruttenberg <alanruttenberg@gmail.com>
Date: Thu, 11 Oct 2007 01:47:18 -0400
Message-Id: <6B2419A9-6FB6-4FC1-97B2-68673F9272E1@gmail.com>
To: public-semweb-lifesci@w3.org

Thanks to Jeremy Zucker for pointing this out to me.

HMS, Alpert Building, Room 563 at 12 noon

Towards knowledge-based semantic integration of models

12 Oct 2007

Carolyn Talcott
Computer Science Lab
SRI International


In spite of standards efforts such as SMBL and BioPax it remains  
difficult to share models of biological processes (for example signal  
transduction or metabilism). It is even more difficult to combine  
models of similar processes developed by different researchers not to  
mention models of different processes/aspects, to obtain a bigger  

I will present some preliminary thoughts on a possible approach to  
improving the situation based on an attempt to represent the  
biological knowledge underlying the models in a framework that is  
(hopefully) independent of specific analysis tools (MatLab,  
PRISM ...) but that supports reasoning about the knowledge.

I will also discuss some of the specific issues that arose in a  
modest case study of models of signaling due to EGF stimulation. I  
will also mention similar issues that arise when importing models  
from publicly avaialable data bases.

Hopefully this will elicit discussion of additional issues that must  
be faced and lead to some productive brainstorming about how to make  
progress in practice.
Received on Thursday, 11 October 2007 05:52:36 UTC

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